Table 2. Characteristics of M. sympodialis gene sets.
| Published (MAKER with homology evidence) (5) | MAKER with homology and RNA-seq evidence | MAKER with homology, RNA-seq and peptide evidence | Manually curated annotation | |
|---|---|---|---|---|
| Protein-coding genes | 3536 | 3612 | 4113 | 4493 |
| Gene density (genes/kb)1 | 0.46 | 0.46 | 0.53 | 0.58 |
| Coding sequence (Mb) | 5.40 | 5.35 | 6.14 | 6.72 |
| Coding exons | 6995 | 8453 | 9212 | 9793 |
| Introns | 3462 | 5030 | 5267 | 5350 |
| Mean exon size (bp)2 | 772 | 635 | 669 | 687 |
| Mean intron size (bp) | 65 | 52 | 50 | 30 |
| Genes supported by peptides | 3176 | 3176 | 3674 | 3891 |
| Introns supported by RNA-seq | 1661 (48%) | 4246 (84%) | 4275 (81%) | 5271 (99%) |
| Out-frame peptides | 4658 (13%) | 5453 (15%) | 1796 (5%) | 338 (1%) |
1Gene density was computed relative to the size of the corresponding genome assembly (7.71 Mb for the draft assembly of Gioti et al. (5) and 7.79 Mb for the current assembly).
2Excluding untranslated regions.